Download

  1. Download and install VANTED 2.1 (if not yet installed)
  2. Download latest FluxMap Add-on (here is the source code and here all files)
  3. Start VANTED
  4. Drag'n Drop the FluxMap.jar onto the VANTED frame or manually install FluxMap:
    • Click Install / Configure Add-ons in side panel Help → Settings
    • Click Install Add-on.
    • Choose FluxMap.jar as add-on to be installed.
    • Click Install.
    • Click Ok.
  5. Download the flux data template from side panel Experiments → Data Input Templates by clicking at button Flux Data and saving the Excel file anywhere (e.g. on your desktop). This template is already filled with some example data.
  6. Download and install the GraphViz library, if you need an automatic layouter (please do not alter the name of the folder to be installed into, don't).
  7. Example data files of a simulated knockout in the glycolysis pathway can be downloaded here (filled template, layouted glycolysis and glycolysis with mapped flux data).

Manual, Workflow & Troubleshooting

The manual for installation and usage of FluxMap can be found here and a tutorial with some images of the workflow here.

If FluxMap shows strange behaviour, such as slow or missing visualisation, the network may have become invalid due to a Vanted bug. In such a case download this script and place it under "C:\Users\--user--\AppData\Roaming\VANTED" (or go to tab "Help / Settings" and click "Show Preferences Folder"). Restart Vanted and execute the new menu item "Edge / Repair Attributes".

Changelog